Variant report

Variant	rs11662888
Chromosome Location	chr18:29300708-29300709
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr18:29300658-29300708	HMEC	breast:	n/a
2	chr18:29300658-29300708	SKMC	muscle:	n/a
3	chr18:29300658-29300708	MCF-7	breast:	n/a
4	chr18:29300658-29300708	PFSK-1	brain:	n/a
5	chr18:29300658-29300708	HAEpiC	amniotic membrane:	n/a
6	chr18:29300658-29300708	GM12892	blood:	n/a
7	chr18:29300658-29300708	Hepatocyte	liver:	n/a
8	chr18:29300658-29300708	BE2_C	brain:	n/a
9	chr18:29300658-29300708	BJ	skin:	n/a
10	chr18:29300658-29300708	PrEC	prostate:	n/a
11	chr18:29300658-29300708	ProgFib	skin:	n/a
12	chr18:29300658-29300708	HNPCEpiC	eye:	n/a
13	chr18:29300658-29300708	ECC-1	luminal epithelium:	n/a
14	chr18:29300658-29300708	NHDF-neo	bronchial:	n/a
15	chr18:29300658-29300708	IMR90	lung:	fetal
16	chr18:29300658-29300708	MCF10A-Er-Src	breast:	n/a
17	chr18:29300658-29300708	NT2-D1	testis:	n/a
18	chr18:29300658-29300708	K562	blood:	n/a
19	chr18:29300658-29300708	GM12891	blood:	n/a
20	chr18:29300658-29300708	GM12878	blood:	n/a
21	chr18:29300658-29300708	A549	lung:	n/a
22	chr18:29300658-29300708	PANC-1	pancreas:	n/a
23	chr18:29300658-29300708	AG10803	skin:	n/a
24	chr18:29300658-29300708	SK-N-SH	brain:	n/a
25	chr18:29300658-29300708	Caco-2	colon:	n/a
26	chr18:29300658-29300708	HepG2	liver:	n/a
27	chr18:29300658-29300708	HRE	kidney:	n/a
28	chr18:29300658-29300708	HRPEpiC	eye:	n/a
29	chr18:29300658-29300708	AG09319	gingival:	n/a
30	chr18:29300658-29300708	HL-60	blood:	n/a
31	chr18:29300658-29300708	AG09309	skin:	n/a
32	chr18:29300658-29300708	SK-N-MC	brain:	n/a
33	chr18:29300658-29300708	HEK293	kidney:	embryo
34	chr18:29300658-29300708	HIPEpiC	eye:	n/a
35	chr18:29300658-29300708	HCM	heart:	n/a
36	chr18:29300658-29300708	CMK	blood:	n/a
37	chr18:29300658-29300708	SAEC	small airway:	n/a
38	chr18:29300658-29300708	SK-N-SH_RA	brain:	n/a
39	chr18:29300658-29300708	AG04450	lung:	fetal
40	chr18:29300658-29300708	ovcar-3	ovarian:	n/a
41	chr18:29300658-29300708	H1-hESC	embryonic stem cell:	embryo
42	chr18:29300658-29300708	GM19239	blood:	n/a
43	chr18:29300658-29300708	HCT-116	colon:	n/a
44	chr18:29300658-29300708	NB4	blood:	n/a
45	chr18:29300658-29300708	T-47D	breast:	n/a
46	chr18:29300658-29300708	RPTEC	kidney:	n/a
47	chr18:29300658-29300708	LNCaP	prostate:	n/a
48	chr18:29300658-29300708	Hela-S3	cervix:	n/a
49	chr18:29300658-29300708	Jurkat	blood:	n/a
50	chr18:29300658-29300708	AoSMC	blood vessel:	n/a

No data

Variant related genes	Relation type
LRRC37A7P	CpG island

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10048246	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11081709	0.87[EUR][1000 genomes]
rs11664049	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12326689	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1972988	0.84[CHB][hapmap];0.84[JPT][hapmap]
rs4799592	0.95[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8092533	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv909519	chr18:29172865-29330214	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1059078	chr18:29225522-29454980	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv543675	chr18:29225522-29454980	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
4	esv3330159	chr18:29291412-29309318	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29299600-29303400	Weak transcription	Stomach Smooth Muscle	stomach
2	chr18:29299600-29303600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr18:29299800-29303400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr18:29299800-29303400	Weak transcription	Brain Anterior Caudate	brain
5	chr18:29300000-29302600	Weak transcription	Liver	Liver
6	chr18:29300200-29300800	Enhancers	Left Ventricle	heart
7	chr18:29300200-29301000	Enhancers	Placenta Amnion	Placenta Amnion
8	chr18:29300200-29301200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr18:29300200-29302000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr18:29300400-29301000	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr18:29300600-29300800	Enhancers	Esophagus	oesophagus
12	chr18:29300600-29303600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr18:29300600-29303800	Weak transcription	Psoas Muscle	Psoas

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